RetrogeneDB ID: retro_meug_1048

Retrocopy location

• Organism: Wallaby (Macropus eugenii)
• Coordinates: Scaffold26976:13823..14372(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMEUG00000016459
• Aliases: None
• Description: None

Sequence

>retro_meug_1048
ATGTCATACTATCAGAGGTACGAAGGAGACATCCAAGTATATGTTGACAACCTGGAAACTGGTGCTGGCAAAGGAGAATT
AGAAAGAGCCTTTAGTTATTATGGTCCCTTAAGAACTATATGGATTGCCAGAAATCCTCCAAGATTTCCCTTTGTGGAGT
TTGAAGATCCAAGGGATTCAGAGGATGGAATCCAACCCCTAGATGGAAAGGTGATTTATAGTTCCAATGTAAAAGTTGAA
TTGTCAACCAGCCTGCCTTGAAGATTTTGGCATGACAAACCACCTGCTTACTGCCCATTCAGTTCTAATGACAGATATTA
TGAATGTTGTGAGAAAGGTCATCATGCTTATGATTTTCACTGCTACAACCAACCAAGGAAAAGTAGGTCACAATCTAGAT
CTCACTGAGGAAGGAGATATTCTTGCTTATGAAGCAGGAACTGTGGAAGGAGGTCGAGATCTGTATCTCCTCAAAGACCA
AGATCTACCTCTCTGTGTACATCTAGATATAATTCAATCCAGTCTTGATAAGGTTCTTTAAAAAGCTCA

Alignment

ORF - retro_meug_1048 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.59 %
• Parental protein coverage: 78.48 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSRYGRYGGETKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPGFAFVEFEDPRDAEDAVRGLDGK
          MS.Y.RY.G...VYV.NL.TGAGKGELERAFSYYGPLRT.WIARNPP.F.FVEFEDPRD.ED....LDGK
Retrocopy MSYYQRYEGDIQVYVDNLETGAGKGELERAFSYYGPLRTIWIARNPPRFPFVEFEDPRDSEDGIQPLDGK

Parental  VICGSRVRVELSTGMPRRSRYDRPPARRPFDPNDRCYECGEKGHYAYDCHRYSRRRRSRSRSRSHSRSRG
          VI..S.V.VELST..P.R...D.PPA..PF..NDR.YEC.EKGH.AYD.H.Y...R.SRS.SRSH...R.
Retrocopy VIYSSNVKVELSTSLP*RFWHDKPPAYCPFSSNDRYYECCEKGHHAYDFHCYNQPRKSRSQSRSH*GRR-

Parental  RRYSRSRSRSRGRRSRSASPRRSRSASLRRSRSASIRSRSGSLKRS
          ..YS...SR..GRRSRS.SP.R.RS.SL..SR..SI.S..GSLK.S
Retrocopy --YSCL*SRNCGRRSRSVSPQRPRSTSLCTSRYNSIQS**GSLKSS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq

Macropus eugenii was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_meug_1048 retrocopy.

TSS

Macropus eugenii was not studied using FANTOM5 data.

Lab

retro_meug_1048 was not experimentally validated.

Homology

Retrocopy orthology:

Macropus eugenii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

---

Parental genes homology:

Parental genes homology involve 11 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000015988	1 retrocopy	retro_amel_1025,
Canis familiaris	ENSCAFG00000029620	1 retrocopy	retro_cfam_652,
Dasypus novemcinctus	ENSDNOG00000007821	2 retrocopies	retro_dnov_317, retro_dnov_829,
Macropus eugenii	ENSMEUG00000001521	2 retrocopies	retro_meug_1173, retro_meug_2182,
Macropus eugenii	ENSMEUG00000016459	1 retrocopy	retro_meug_1048 ,
Myotis lucifugus	ENSMLUG00000009536	2 retrocopies	retro_mluc_2005, retro_mluc_972,
Monodelphis domestica	ENSMODG00000008669	1 retrocopy	retro_mdom_289,
Mus musculus	ENSMUSG00000024097	1 retrocopy	retro_mmus_3288,
Otolemur garnettii	ENSOGAG00000010169	2 retrocopies	retro_ogar_3467, retro_ogar_3481,
Rattus norvegicus	ENSRNOG00000027360	11 retrocopies	retro_rnor_1535, retro_rnor_1977, retro_rnor_1984, retro_rnor_2419, retro_rnor_2420, retro_rnor_2421, retro_rnor_2495, retro_rnor_2501, retro_rnor_2502, retro_rnor_2503, retro_rnor_478,
Sarcophilus harrisii	ENSSHAG00000015970	1 retrocopy	retro_shar_72,